HEADER PROTEIN TRANSPORT 01-JUN-07 2JQH TITLE VPS4B MIT COMPND MOL_ID: 1; COMPND 2 MOLECULE: VACUOLAR PROTEIN SORTING-ASSOCIATING PROTEIN 4B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MIT DOMAIN, RESIDUES 1-86; COMPND 5 SYNONYM: SUPPRESSOR OF K+, TRANSPORT GROWTH DEFECT 1, PROTEIN SKD1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: VPS4B, SKD1, VPS42; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET16B KEYWDS VPS4B, MIT, THREE HELIX BUNDLE, PROTEIN TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.D.STUCHELL-BRERETON,J.J.SKALICKY,C.KIEFFER,S.GHAFFARIAN, AUTHOR 2 W.I.SUNDQUIST REVDAT 4 20-DEC-23 2JQH 1 REMARK REVDAT 3 09-MAR-22 2JQH 1 REMARK SEQADV REVDAT 2 24-FEB-09 2JQH 1 VERSN REVDAT 1 16-OCT-07 2JQH 0 JRNL AUTH M.D.STUCHELL-BRERETON,J.J.SKALICKY,C.KIEFFER,M.A.KARREN, JRNL AUTH 2 S.GHAFFARIAN,W.I.SUNDQUIST JRNL TITL ESCRT-III RECOGNITION BY VPS4 ATPASES. JRNL REF NATURE V. 449 740 2007 JRNL REFN ISSN 0028-0836 JRNL PMID 17928862 JRNL DOI 10.1038/NATURE06172 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 2004, CNS 1.2 REMARK 3 AUTHORS : ACCELRYS SOFTWARE INC. (FELIX), BRUNGER, ADAMS, REMARK 3 CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT USING ANNEAL.INP AND USING REMARK 3 SUMMED NOE CONSTRAINTS WITH MAX T OF 3000 K FOR SIMULATED REMARK 3 ANNEALING. REMARK 4 REMARK 4 2JQH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000100161. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.65 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.8 MM [U-100% 13C; U-100% 15N] REMARK 210 VPS4B MIT, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCACB; 3D CBCA(CO)NH; 3D REMARK 210 HBHA(CO)NH; 3D HNHA; 3D C(CO)NH; REMARK 210 3D H(CCO)NH; 3D HCCH-COSY; 3D REMARK 210 HCCH-TOCSY; 3D 1H-13C NOESY; 3D REMARK 210 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.112, CYANA 2.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: HALF-FILTERED NOESYS PROVIDED THE INTERMOLECULAR NOES REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 1 REMARK 465 HIS A 2 REMARK 465 MET A 3 REMARK 465 MET A 4 REMARK 465 SER A 5 REMARK 465 SER A 6 REMARK 465 THR A 7 REMARK 465 SER A 8 REMARK 465 PRO A 9 REMARK 465 LYS A 82 REMARK 465 GLU A 83 REMARK 465 LYS A 84 REMARK 465 LYS A 85 REMARK 465 ALA A 86 REMARK 465 GLN A 87 REMARK 465 LYS A 88 REMARK 465 PRO A 89 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 TYR A 50 -73.52 -71.74 REMARK 500 1 ALA A 52 -177.10 -69.79 REMARK 500 2 GLU A 51 101.28 -168.16 REMARK 500 3 TYR A 50 -73.55 -80.93 REMARK 500 3 GLU A 51 97.52 -160.20 REMARK 500 4 TYR A 50 -71.34 -87.11 REMARK 500 4 GLU A 51 95.31 -163.86 REMARK 500 5 GLU A 51 96.41 -167.28 REMARK 500 5 ALA A 52 -169.85 -65.53 REMARK 500 6 TYR A 50 -73.74 -78.11 REMARK 500 6 GLU A 51 98.35 -161.85 REMARK 500 6 ALA A 52 -169.85 -67.23 REMARK 500 7 TYR A 50 -61.59 -104.29 REMARK 500 7 GLU A 51 105.11 -176.61 REMARK 500 8 TYR A 50 -72.19 -78.98 REMARK 500 8 GLU A 51 98.86 -166.36 REMARK 500 8 ALA A 52 -169.91 -71.63 REMARK 500 9 TYR A 50 -73.85 -60.32 REMARK 500 9 GLU A 51 91.22 -165.06 REMARK 500 9 ALA A 52 -176.03 -60.13 REMARK 500 10 TYR A 50 -66.22 -103.38 REMARK 500 10 ALA A 52 -169.80 -66.11 REMARK 500 11 TYR A 50 -73.20 -67.56 REMARK 500 11 GLU A 51 94.60 -164.20 REMARK 500 11 ALA A 52 -176.03 -62.84 REMARK 500 12 ASN A 29 93.46 -57.15 REMARK 500 12 GLU A 51 92.78 -169.37 REMARK 500 12 ALA A 52 -169.79 -59.64 REMARK 500 12 ASP A 55 -59.72 -125.60 REMARK 500 13 TYR A 50 -73.69 -74.91 REMARK 500 13 GLU A 51 95.94 -160.89 REMARK 500 13 ALA A 52 -176.10 -67.48 REMARK 500 14 GLU A 51 90.79 -173.60 REMARK 500 14 ALA A 52 -178.12 -64.01 REMARK 500 15 TYR A 50 -73.47 -77.56 REMARK 500 15 GLU A 51 94.58 -161.61 REMARK 500 15 ALA A 52 -176.05 -66.28 REMARK 500 16 TYR A 50 -71.12 -72.67 REMARK 500 16 GLU A 51 92.51 -165.75 REMARK 500 16 ALA A 52 -176.05 -59.85 REMARK 500 17 TYR A 50 -72.48 -87.56 REMARK 500 17 GLU A 51 97.85 -162.47 REMARK 500 17 ALA A 52 -169.84 -72.23 REMARK 500 18 TYR A 50 -73.77 -71.37 REMARK 500 18 GLU A 51 96.25 -168.09 REMARK 500 18 ALA A 52 -171.08 -60.07 REMARK 500 19 GLU A 51 99.37 -171.96 REMARK 500 20 GLU A 51 94.26 -169.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2JQK RELATED DB: PDB DBREF 2JQH A 4 89 UNP O75351 VPS4B_HUMAN 1 86 SEQADV 2JQH GLY A 1 UNP O75351 EXPRESSION TAG SEQADV 2JQH HIS A 2 UNP O75351 EXPRESSION TAG SEQADV 2JQH MET A 3 UNP O75351 EXPRESSION TAG SEQRES 1 A 89 GLY HIS MET MET SER SER THR SER PRO ASN LEU GLN LYS SEQRES 2 A 89 ALA ILE ASP LEU ALA SER LYS ALA ALA GLN GLU ASP LYS SEQRES 3 A 89 ALA GLY ASN TYR GLU GLU ALA LEU GLN LEU TYR GLN HIS SEQRES 4 A 89 ALA VAL GLN TYR PHE LEU HIS VAL VAL LYS TYR GLU ALA SEQRES 5 A 89 GLN GLY ASP LYS ALA LYS GLN SER ILE ARG ALA LYS CYS SEQRES 6 A 89 THR GLU TYR LEU ASP ARG ALA GLU LYS LEU LYS GLU TYR SEQRES 7 A 89 LEU LYS ASN LYS GLU LYS LYS ALA GLN LYS PRO HELIX 1 1 ASN A 10 GLY A 28 1 19 HELIX 2 2 TYR A 30 ALA A 52 1 23 HELIX 3 3 GLY A 54 ASN A 81 1 28 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1